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Volumn 22, Issue 3, 2008, Pages 279-285

The search for alternative splicing regulators: New approaches offer a path to a splicing code

Author keywords

[No Author keywords available]

Indexed keywords

RNA BINDING PROTEIN; RNA POLYMERASE II; TRANSCRIPTION FACTOR;

EID: 38949133822     PISSN: 08909369     EISSN: 15495477     Source Type: Journal    
DOI: 10.1101/gad.1643108     Document Type: Review
Times cited : (41)

References (46)
  • 1
    • 14844367002 scopus 로고    scopus 로고
    • Regulation of heterogenous nuclear ribonucleoprotein A1 transport by phosphorylation in cells stressed by osmotic shock
    • Allemand, E., Guil, S., Myers, M., Moscat, J., Caceres, J.F., and Krainer, A.R. 2005. Regulation of heterogenous nuclear ribonucleoprotein A1 transport by phosphorylation in cells stressed by osmotic shock. Proc. Natl. Acad. Sci. 102: 3605-3610.
    • (2005) Proc. Natl. Acad. Sci , vol.102 , pp. 3605-3610
    • Allemand, E.1    Guil, S.2    Myers, M.3    Moscat, J.4    Caceres, J.F.5    Krainer, A.R.6
  • 2
    • 9444284320 scopus 로고    scopus 로고
    • The RNA-binding protein SUP-12 controls muscle-specific splicing of the ADF/cofilin pre-mRNA in C. elegans
    • Anyanful, A., Ono, K., Johnsen, R.C., Ly, H., Jensen, V., Baillie, D.L., and Ono, S. 2004. The RNA-binding protein SUP-12 controls muscle-specific splicing of the ADF/cofilin pre-mRNA in C. elegans. J. Cell Biol. 167: 639-647.
    • (2004) J. Cell Biol , vol.167 , pp. 639-647
    • Anyanful, A.1    Ono, K.2    Johnsen, R.C.3    Ly, H.4    Jensen, V.5    Baillie, D.L.6    Ono, S.7
  • 4
    • 33646148029 scopus 로고    scopus 로고
    • Descrambling Dscam diversity
    • Bharadwaj, R. and Kolodkin, A.L. 2006. Descrambling Dscam diversity. Cell 125: 421-424.
    • (2006) Cell , vol.125 , pp. 421-424
    • Bharadwaj, R.1    Kolodkin, A.L.2
  • 5
    • 0026748223 scopus 로고
    • Activation of c-src neuron-specific splicing by an unusual RNA element in vivo and in vitro
    • Black, D.L. 1992. Activation of c-src neuron-specific splicing by an unusual RNA element in vivo and in vitro. Cell 69: 795-807.
    • (1992) Cell , vol.69 , pp. 795-807
    • Black, D.L.1
  • 6
    • 0013394889 scopus 로고    scopus 로고
    • Mechanisms of alternative pre-messenger RNA splicing
    • Black, D.L. 2003. Mechanisms of alternative pre-messenger RNA splicing. Annu. Rev. Biochem. 72: 291-336.
    • (2003) Annu. Rev. Biochem , vol.72 , pp. 291-336
    • Black, D.L.1
  • 8
    • 2142712484 scopus 로고    scopus 로고
    • RNA interference of mRNA processing factors in Drosophila S2 cells
    • Celotto, A.M. and Graveley, B.R. 2004. RNA interference of mRNA processing factors in Drosophila S2 cells. Methods Mol. Biol. 257: 245-254.
    • (2004) Methods Mol. Biol , vol.257 , pp. 245-254
    • Celotto, A.M.1    Graveley, B.R.2
  • 9
    • 0028800302 scopus 로고
    • Conserved intron elements repress splicing of a neuron-specific c-src exon in vitro
    • Chan, R.C. and Black, D.L. 1995. Conserved intron elements repress splicing of a neuron-specific c-src exon in vitro. Mol. Cell. Biol. 15: 6377-6385.
    • (1995) Mol. Cell. Biol , vol.15 , pp. 6377-6385
    • Chan, R.C.1    Black, D.L.2
  • 10
    • 33645220093 scopus 로고    scopus 로고
    • Regulation of CD44 alternative splicing by SRm160 and its potential role in tumor cell invasion
    • Cheng, C. and Sharp, P.A. 2006. Regulation of CD44 alternative splicing by SRm160 and its potential role in tumor cell invasion. Mol. Cell. Biol. 26: 362-370.
    • (2006) Mol. Cell. Biol , vol.26 , pp. 362-370
    • Cheng, C.1    Sharp, P.A.2
  • 11
    • 0030761276 scopus 로고    scopus 로고
    • Functional association between promoter structure and transcript alternative splicing
    • Cramer, P., Pesce, C.G., Baralle, F.E., and Kornblihtt, A.R. 1997. Functional association between promoter structure and transcript alternative splicing. Proc. Natl. Acad. Sci. 94: 11456-11460.
    • (1997) Proc. Natl. Acad. Sci , vol.94 , pp. 11456-11460
    • Cramer, P.1    Pesce, C.G.2    Baralle, F.E.3    Kornblihtt, A.R.4
  • 12
    • 0033838148 scopus 로고    scopus 로고
    • The RNA-binding protein TIA-1 is a novel mammalian splicing regulator acting through intron sequences adjacent to a 5′ splice site
    • Del Gatto-Konczak, F., Bourgeois, C.F., Le Guiner, C., Kister, L., Gesnel, M.C., Stevenin, J., and Breathnach, R. 2000. The RNA-binding protein TIA-1 is a novel mammalian splicing regulator acting through intron sequences adjacent to a 5′ splice site. Mol. Cell. Biol. 20: 6287-6299.
    • (2000) Mol. Cell. Biol , vol.20 , pp. 6287-6299
    • Del Gatto-Konczak, F.1    Bourgeois, C.F.2    Le Guiner, C.3    Kister, L.4    Gesnel, M.C.5    Stevenin, J.6    Breathnach, R.7
  • 14
    • 26944489263 scopus 로고    scopus 로고
    • Target RNA motif and target mRNAs of the Quaking STAR protein
    • Galarneau, A. and Richard, S. 2005. Target RNA motif and target mRNAs of the Quaking STAR protein. Nat. Struct. Mol. Biol. 12: 691-698.
    • (2005) Nat. Struct. Mol. Biol , vol.12 , pp. 691-698
    • Galarneau, A.1    Richard, S.2
  • 15
    • 0033835333 scopus 로고    scopus 로고
    • Sorting out the complexity of SR protein functions
    • Graveley, B.R. 2000. Sorting out the complexity of SR protein functions. RNA 6: 1197-1211.
    • (2000) RNA , vol.6 , pp. 1197-1211
    • Graveley, B.R.1
  • 17
    • 0037450704 scopus 로고    scopus 로고
    • A vertebrate RNA-binding protein Fox-1 regulates tissue-specific splicing via the pentanucleotide GCAUG
    • Jin, Y., Suzuki, H., Maegawa, S., Endo, H., Sugano, S., Hashimoto, K., Yasuda, K., and Inoue, K. 2003. A vertebrate RNA-binding protein Fox-1 regulates tissue-specific splicing via the pentanucleotide GCAUG. EMBO J. 22: 905-912.
    • (2003) EMBO J , vol.22 , pp. 905-912
    • Jin, Y.1    Suzuki, H.2    Maegawa, S.3    Endo, H.4    Sugano, S.5    Hashimoto, K.6    Yasuda, K.7    Inoue, K.8
  • 18
    • 33746609827 scopus 로고    scopus 로고
    • Intronic alternative splicing regulators identified by comparative genomics in nematodes
    • doi: 10.1371/journal.pcbi.0020086
    • Kabat, J.L., Barberan-Soler, S., McKenna, P., Clawson, H., Farrer, T., and Zahler, A.M. 2006. Intronic alternative splicing regulators identified by comparative genomics in nematodes. PLoS Comput. Biol. 2: e86. doi: 10.1371/journal.pcbi.0020086.
    • (2006) PLoS Comput. Biol , vol.2
    • Kabat, J.L.1    Barberan-Soler, S.2    McKenna, P.3    Clawson, H.4    Farrer, T.5    Zahler, A.M.6
  • 19
    • 33845275018 scopus 로고    scopus 로고
    • RIP-Chip: The isolation and identification of mRNAs, microRNAs and protein components of ribonucleoprotein complexes from cell extracts
    • Keene, J.D., Komisarow, J.M., and Friedersdorf, M.B. 2006. RIP-Chip: The isolation and identification of mRNAs, microRNAs and protein components of ribonucleoprotein complexes from cell extracts. Nat. Protoc. 1: 302-307.
    • (2006) Nat. Protoc , vol.1 , pp. 302-307
    • Keene, J.D.1    Komisarow, J.M.2    Friedersdorf, M.B.3
  • 20
    • 19344363974 scopus 로고    scopus 로고
    • Promoter usage and alternative splicing
    • Kornblihtt, A.R. 2005. Promoter usage and alternative splicing. Curr. Opin. Cell Biol. 17: 262-268.
    • (2005) Curr. Opin. Cell Biol , vol.17 , pp. 262-268
    • Kornblihtt, A.R.1
  • 21
    • 33750293514 scopus 로고    scopus 로고
    • Transgenic alternative-splicing reporters reveal tissue-specific expression profiles and regulation mechanisms in vivo
    • Kuroyanagi, H., Kobayashi, T., Mitani, S., and Hagiwara, M. 2006. Transgenic alternative-splicing reporters reveal tissue-specific expression profiles and regulation mechanisms in vivo. Nat. Methods 3: 909-915.
    • (2006) Nat. Methods , vol.3 , pp. 909-915
    • Kuroyanagi, H.1    Kobayashi, T.2    Mitani, S.3    Hagiwara, M.4
  • 22
    • 37549047982 scopus 로고    scopus 로고
    • The Fox-1 family and SUP-12 coordinately regulate tissuespecific alternative splicing in vivo
    • Kuroyanagi, H., Ohno, G., Mitani, S., and Hagiwara, M. 2007. The Fox-1 family and SUP-12 coordinately regulate tissuespecific alternative splicing in vivo. Mol. Cell. Biol. 27: 8612-8621.
    • (2007) Mol. Cell. Biol , vol.27 , pp. 8612-8621
    • Kuroyanagi, H.1    Ohno, G.2    Mitani, S.3    Hagiwara, M.4
  • 23
    • 0035146628 scopus 로고    scopus 로고
    • The CELF family of RNA binding proteins is implicated in cell-specific and developmentally regulated alternative splicing
    • Ladd, A.N., Charlet, N., and Cooper, T.A. 2001. The CELF family of RNA binding proteins is implicated in cell-specific and developmentally regulated alternative splicing. Mol. Cell. Biol. 21: 1285-1296.
    • (2001) Mol. Cell. Biol , vol.21 , pp. 1285-1296
    • Ladd, A.N.1    Charlet, N.2    Cooper, T.A.3
  • 24
    • 0032435862 scopus 로고    scopus 로고
    • Alternative splicing of pre-mRNA: Developmental consequences and mechanisms of regulation
    • Lopez, A.J. 1998. Alternative splicing of pre-mRNA: Developmental consequences and mechanisms of regulation. Annu. Rev. Genet. 32: 279-305.
    • (1998) Annu. Rev. Genet , vol.32 , pp. 279-305
    • Lopez, A.J.1
  • 25
    • 0029767662 scopus 로고    scopus 로고
    • SR proteins and splicing control
    • Manley, J.L. and Tacke, R. 1996. SR proteins and splicing control. Genes & Dev. 10: 1569-1579.
    • (1996) Genes & Dev , vol.10 , pp. 1569-1579
    • Manley, J.L.1    Tacke, R.2
  • 26
    • 0033800453 scopus 로고    scopus 로고
    • Cooperative assembly of an hnRNP complex induced by a tissue-specific homolog of polypyrimidine tract binding protein
    • Markovtsov, V., Nikolic, J.M., Goldman, J.A., Turck, C.W., Chou, M.Y., and Black, D.L. 2000. Cooperative assembly of an hnRNP complex induced by a tissue-specific homolog of polypyrimidine tract binding protein. Mol. Cell. Biol. 20: 7463-7479.
    • (2000) Mol. Cell. Biol , vol.20 , pp. 7463-7479
    • Markovtsov, V.1    Nikolic, J.M.2    Goldman, J.A.3    Turck, C.W.4    Chou, M.Y.5    Black, D.L.6
  • 27
    • 33244483620 scopus 로고    scopus 로고
    • Intronic binding sites for hnRNP A/B and hnRNP F/H proteins stimulate pre-mRNA splicing
    • doi: 10.1371/journal.pbio.0040021
    • Martinez-Contreras, R., Fisette, J.F., Nasim, F.U., Madden, R., Cordeau, M., and Chabot, B. 2006. Intronic binding sites for hnRNP A/B and hnRNP F/H proteins stimulate pre-mRNA splicing. PLoS Biol. 4: e21. doi: 10.1371/journal.pbio.0040021.
    • (2006) PLoS Biol , vol.4
    • Martinez-Contreras, R.1    Fisette, J.F.2    Nasim, F.U.3    Madden, R.4    Cordeau, M.5    Chabot, B.6
  • 28
    • 18344364099 scopus 로고    scopus 로고
    • Understanding alternative splicing: Towards a cellular code
    • Matlin, A.J., Clark, F., and Smith, C.W. 2005. Understanding alternative splicing: Towards a cellular code. Nat. Rev. Mol. Cell Biol. 6: 386-398.
    • (2005) Nat. Rev. Mol. Cell Biol , vol.6 , pp. 386-398
    • Matlin, A.J.1    Clark, F.2    Smith, C.W.3
  • 29
    • 0037069651 scopus 로고    scopus 로고
    • Signal-dependent regulation of splicing via phosphorylation of Sam68
    • Matter, N., Herrlich, P., and Konig, H. 2002. Signal-dependent regulation of splicing via phosphorylation of Sam68. Nature 420: 691-695.
    • (2002) Nature , vol.420 , pp. 691-695
    • Matter, N.1    Herrlich, P.2    Konig, H.3
  • 30
    • 24344452361 scopus 로고    scopus 로고
    • A genome-wide in situ hybridization map of RNA-binding proteins reveals anatomically restricted expression in the developing mouse brain
    • doi: 10.1186/1471-213x-5-14
    • McKee, A.E., Minet, E., Stern, C., Riahi, S., Stiles, C.D., and Silver, P.A. 2005. A genome-wide in situ hybridization map of RNA-binding proteins reveals anatomically restricted expression in the developing mouse brain. BMC Dev. Biol. 5: 14. doi: 10.1186/1471-213x-5-14.
    • (2005) BMC Dev. Biol , vol.5 , pp. 14
    • McKee, A.E.1    Minet, E.2    Stern, C.3    Riahi, S.4    Stiles, C.D.5    Silver, P.A.6
  • 31
    • 0030969572 scopus 로고    scopus 로고
    • A new regulatory protein, KSRP, mediates exon inclusion through an intronic splicing enhancer
    • Min, H., Turck, C.W., Nikolic, J.M., and Black, D.L. 1997. A new regulatory protein, KSRP, mediates exon inclusion through an intronic splicing enhancer. Genes & Dev. 11: 1023-1036.
    • (1997) Genes & Dev , vol.11 , pp. 1023-1036
    • Min, H.1    Turck, C.W.2    Nikolic, J.M.3    Black, D.L.4
  • 32
    • 0030832044 scopus 로고    scopus 로고
    • A complex intronic splicing enhancer from the c-src pre-mRNA activates inclusion of a heterologous exon
    • Modafferi, E.F. and Black, D.L. 1997. A complex intronic splicing enhancer from the c-src pre-mRNA activates inclusion of a heterologous exon. Mol. Cell. Biol. 17: 6537-6545.
    • (1997) Mol. Cell. Biol , vol.17 , pp. 6537-6545
    • Modafferi, E.F.1    Black, D.L.2
  • 33
    • 0033638283 scopus 로고    scopus 로고
    • Direct coupling of transcription and mRNA processing through the thermogenic coactivator PGC-1
    • Monsalve, M., Wu, Z., Adelmant, G., Puigserver, P., Fan, M., and Spiegelman, B.M. 2000. Direct coupling of transcription and mRNA processing through the thermogenic coactivator PGC-1. Mol. Cell 6: 307-316.
    • (2000) Mol. Cell , vol.6 , pp. 307-316
    • Monsalve, M.1    Wu, Z.2    Adelmant, G.3    Puigserver, P.4    Fan, M.5    Spiegelman, B.M.6
  • 34
    • 38949110702 scopus 로고    scopus 로고
    • STAR family RNA-binding protein ASD-2 regulates developmental switching of mutually exclusive alternative splicing in vivo
    • this issue, doi: 10.1101/gad.1620608
    • Ohno, G., Hagiwara, M., and Kuroyanagi, H. 2008. STAR family RNA-binding protein ASD-2 regulates developmental switching of mutually exclusive alternative splicing in vivo. Genes & Dev. (this issue), doi: 10.1101/gad.1620608.
    • (2008) Genes & Dev
    • Ohno, G.1    Hagiwara, M.2    Kuroyanagi, H.3
  • 37
    • 0027423149 scopus 로고
    • Genetic identification, sequence, and alternative splicing of the Caenorhabditis elegans α 2(IV) collagen gene
    • Sibley, M.H., Johnson, J.J., Mello, C.C., and Kramer, J.M. 1993. Genetic identification, sequence, and alternative splicing of the Caenorhabditis elegans α 2(IV) collagen gene. J. Cell Biol. 123: 255-264.
    • (1993) J. Cell Biol , vol.123 , pp. 255-264
    • Sibley, M.H.1    Johnson, J.J.2    Mello, C.C.3    Kramer, J.M.4
  • 38
    • 0034256020 scopus 로고    scopus 로고
    • Alternative pre-mRNA splicing: The logic of combinatorial control
    • Smith, C.W. and Valcarcel, J. 2000. Alternative pre-mRNA splicing: The logic of combinatorial control. Trends Biochem. Sci. 25: 381-388.
    • (2000) Trends Biochem. Sci , vol.25 , pp. 381-388
    • Smith, C.W.1    Valcarcel, J.2
  • 39
    • 0032478506 scopus 로고    scopus 로고
    • Human Tra2 proteins are sequence-specific activators of pre-mRNA splicing
    • Tacke, R., Tohyama, M., Ogawa, S., and Manley, J.L. 1998. Human Tra2 proteins are sequence-specific activators of pre-mRNA splicing. Cell 93: 139-148.
    • (1998) Cell , vol.93 , pp. 139-148
    • Tacke, R.1    Tohyama, M.2    Ogawa, S.3    Manley, J.L.4
  • 40
    • 0028025033 scopus 로고
    • A splicing enhancer exhibits both constitutive and regulated activities
    • Tian, M. and Maniatis, T. 1994. A splicing enhancer exhibits both constitutive and regulated activities. Genes & Dev. 8: 1703-1712.
    • (1994) Genes & Dev , vol.8 , pp. 1703-1712
    • Tian, M.1    Maniatis, T.2
  • 41
    • 0035865250 scopus 로고    scopus 로고
    • Expressing the human genome
    • Tupler, R., Perini, G., and Green, M.R. 2001. Expressing the human genome. Nature 409: 832-833.
    • (2001) Nature , vol.409 , pp. 832-833
    • Tupler, R.1    Perini, G.2    Green, M.R.3
  • 42
    • 0242497663 scopus 로고    scopus 로고
    • CLIP identifies Nova-regulated RNA networks in the brain
    • Ule, J., Jensen, K.B., Ruggiu, M., Mele, A., Ule, A., and Darnell, R.B. 2003. CLIP identifies Nova-regulated RNA networks in the brain. Science 302: 1212-1215.
    • (2003) Science , vol.302 , pp. 1212-1215
    • Ule, J.1    Jensen, K.B.2    Ruggiu, M.3    Mele, A.4    Ule, A.5    Darnell, R.B.6
  • 44
    • 36248931620 scopus 로고    scopus 로고
    • A genome-wide RNA interference screen reveals that variant histones are necessary for replication-dependent histone pre-mRNA processing
    • Wagner, E.J., Burch, B.D., Godfrey, A.C., Salzler, H.R., Duronio, R.J., and Marzluff, W.F. 2007. A genome-wide RNA interference screen reveals that variant histones are necessary for replication-dependent histone pre-mRNA processing. Mol. Cell 28: 692-699.
    • (2007) Mol. Cell , vol.28 , pp. 692-699
    • Wagner, E.J.1    Burch, B.D.2    Godfrey, A.C.3    Salzler, H.R.4    Duronio, R.J.5    Marzluff, W.F.6
  • 45
    • 0037007093 scopus 로고    scopus 로고
    • Function of quaking in myelination: Regulation of alternative splicing
    • Wu, J.I., Reed, R.B., Grabowski, P.J., and Artzt, K. 2002. Function of quaking in myelination: Regulation of alternative splicing. Proc. Natl. Acad. Sci. 99: 4233-4238.
    • (2002) Proc. Natl. Acad. Sci , vol.99 , pp. 4233-4238
    • Wu, J.I.1    Reed, R.B.2    Grabowski, P.J.3    Artzt, K.4
  • 46
    • 33845380816 scopus 로고    scopus 로고
    • A nuclear function of Hu proteins as neuron-specific alternative RNA processing regulators
    • Zhu, H., Hasman, R.A., Barron, V.A., Luo, G., and Lou, H. 2006. A nuclear function of Hu proteins as neuron-specific alternative RNA processing regulators. Mol. Biol. Cell 17: 5105-5114.
    • (2006) Mol. Biol. Cell , vol.17 , pp. 5105-5114
    • Zhu, H.1    Hasman, R.A.2    Barron, V.A.3    Luo, G.4    Lou, H.5


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.